X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4AGUENSEMBLE OF PDB ENTRIES 4AGU AND 4AAA
experimental modelPDB 4AAAENSEMBLE OF PDB ENTRIES 4AGU AND 4AAA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.03M ZN CL, 30% PEG_6000, 5% ETHYLENE GLYCOL, MES PH5.5
Crystal Properties
Matthews coefficientSolvent content
2.7254.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 63.93α = 90
b = 63.93β = 90
c = 163.63γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2012-10-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04DiamondI04

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.254.5499.90.110.75.2204462
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.271000.632.52.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTENSEMBLE OF PDB ENTRIES 4AGU AND 4AAA2.245.8918821101397.10.216620.214250.26248RANDOM55.118
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
1.271.271.27-4.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.15
r_dihedral_angle_4_deg24.066
r_dihedral_angle_3_deg14.956
r_dihedral_angle_1_deg6.554
r_mcangle_it1.823
r_scbond_it1.763
r_angle_refined_deg1.51
r_mcbond_it1.143
r_mcbond_other1.142
r_angle_other_deg0.793
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.15
r_dihedral_angle_4_deg24.066
r_dihedral_angle_3_deg14.956
r_dihedral_angle_1_deg6.554
r_mcangle_it1.823
r_scbond_it1.763
r_angle_refined_deg1.51
r_mcbond_it1.143
r_mcbond_other1.142
r_angle_other_deg0.793
r_chiral_restr0.086
r_bond_refined_d0.013
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2319
Nucleic Acid Atoms
Solvent Atoms159
Heterogen Atoms38

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
Aimlessdata scaling
PHASERphasing